RALGAPA2 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10017072
Fusion event
HBV-RALGAPA2 integration
Validated
No
Detection method
Capture-NGS platform
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2019
PubMed ID
30070724
Virus Sequence
Virus name
HBV
Subtype
C
Reference genome
NC_003977
Start
1116
End
1204
Integrated sequence
CCTTTCTGTGTAAACAATACCTGAACCTTTACCCCGTTGCCCGGCAACGGCCAGGTCTGTGCCAAGTGTTTGCTGACGCAACCCCCACT
Host Sequence
Chromosome
chr20
Cytoband
p11.23
Reference genome
GRCh37/hg19
Start
20553076/20572432 (Hg38)
End
20553173/20572529 (Hg38)
Location type
Intron
Fragile sites / regions
FRA20A
Target gene
RALGAPA2
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-let-7c-5p ; hsa-mir-6763-5p ; hsa-mir-3150a-3p ; hsa-mir-491-5p ; hsa-mir-6825-5p ; hsa-mir-92a-2-5p ; hsa-mir-939-5p ; hsa-mir-1343-5p ; hsa-mir-3175 ; hsa-mir-3616-3p ; hsa-mir-576-5p ; hsa-mir-4263 ; hsa-mir-627-3p
Nearest miRNA
hsa-mir-103a-2/Upstream/2101741; hsa-mir-1-1/Downstream/5635657;
Nearest TSS
ENST00000382410/Upstream/59774; ENST00000432942/Downstream/32883;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/119747, chr20-CpG: 106/Downstream/139575
Upstream sequence
ACGGGGCTCTGCAAAGGTGATGCTATGCCTATGTGATAAGAGCATACTTATTCTGTTTGTTTAGAAAGCTTTTTGCATATTTGATATTACTGACAACAAA
Downstream sequence
ctatgaatactgatgttaattttcttctttgtatttttctacatttttcaaattgtatacaatacaaccaatatcacttttataaAGAGAGTAACTAGAA
Target sequence
caagactccatttcaaaaaaaaaaaaaaaaCTTGTATGTACTCTAAGATTCTACTTTCAtaaaaagaaagaagactatatattaatattggctattt
Reference
Li, C. L., et al.Androgen Receptor Enhances Hepatic Telomerase Reverse Transcriptase Gene Transcription After Hepatitis B Virus Integration or Point Mutation in Promoter Region. Hepatology,2019, 69(2): 498-512.
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